X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP8.52930.2M Sodium malonate, 0.1M Bis-tris-propane pH 8.5, 20.0% PEG 3350, 10.0% Ethylene glycol, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
1.8734.27

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 69.68α = 90
b = 69.68β = 90
c = 103.98γ = 120
Symmetry
Space GroupP 32 1 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2007-01-22MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X10SA1.00234SLSX10SA

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
1252.191000.0660.06621.18.41979819798
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
122.111000.7390.73948.2

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entries 1OEB,1FMK252.191874918749101399.920.190930.190930.18890.23014RANDOM40.878
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
0.860.430.86-1.29
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.29
r_dihedral_angle_4_deg21.537
r_dihedral_angle_3_deg12.797
r_scangle_it6.767
r_dihedral_angle_1_deg6.075
r_scbond_it5.108
r_mcangle_it3.654
r_mcbond_it2.855
r_angle_refined_deg1.378
r_mcbond_other0.909
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.29
r_dihedral_angle_4_deg21.537
r_dihedral_angle_3_deg12.797
r_scangle_it6.767
r_dihedral_angle_1_deg6.075
r_scbond_it5.108
r_mcangle_it3.654
r_mcbond_it2.855
r_angle_refined_deg1.378
r_mcbond_other0.909
r_angle_other_deg0.846
r_symmetry_vdw_other0.272
r_nbd_other0.204
r_nbtor_refined0.19
r_nbd_refined0.188
r_xyhbond_nbd_refined0.139
r_nbtor_other0.088
r_chiral_restr0.079
r_symmetry_vdw_refined0.079
r_symmetry_hbond_refined0.016
r_bond_refined_d0.014
r_gen_planes_refined0.006
r_bond_other_d0.003
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1758
Nucleic Acid Atoms
Solvent Atoms84
Heterogen Atoms8

Software

Software
Software NamePurpose
REFMACrefinement
MAR345data collection
MOSFLMdata reduction
SCALAdata scaling
PHASERphasing